Contents

Symbols

.sizes

A

Additional Draw Area allow-websocket-origin aneuploidy annotation Annotation Coordinate System

Annotation type Annotations Apply binomial test to columns Associated slices Auto Render Axes Labels

B

Binomial test

Bins Box zoom

C

Center Tracks on Bins Character of Labels Color Color Palette Color Range Color Scale Log Base Color Scale Range Column Viewpoint Command line interface

Compare datapools compiling Compute background for columns Compute for columns Compute for rows Connect Tracks over Contig Borders Coordinate axis Coordinates Crosshair

D

Datapools Directionality Display Display background as secondary data

Display coverage as secondary data Display Tracks on a Log Scale Dist. Dep. Dec. do correct Download current session

E

Export export, [1]

Export files to server instead of downloading them export full matrix instead of visible region

F

File Fill contigs that are smaller than one bin Filter

Filter out interactions that don't overlap annotation Filter out interactions that overlap annotation filter out slices with too many empty bins

G

get

gff

H

help heterozygous

homozygous Hover

I

Ignore cis interactions Ignore first n bins next to the diagonal Info

init, [1] installation Iterative correction

K

keep_alive

L

Local IC

M

Mad Max filter Make Bins Squares Mapping Mapping Quality: Lower Bound Mapping Quality: Upper Bound Max number of Bins

Maximal DNA reads in bin bounds Merge datasets Minimal number of non-zero bins per slice Minimum Bin Size Minimum Distance from Diagonal Multiple Annotations in Bin Multiple Bins for Annotation

N

Navigation bar no_save Normalize

Normalize by viewpoint size Normalize heatmap by Number of samples

P

pAccept for binomial test pairs Pan Panels Percentile of samples to keep (%) pip

Ploidy ploidy, [1] Plot tools port Presetting Primary Primary Datapools

R

RADICL-seq RD-SPRITE Redraw if zoomed in by Regions axis Remainder Bin Render Now

Rendering repl Reset reset, [1] RNA reads per kbp bounds Row Viewpoint

S

Secondary Datapools Section size max coverage serve, [1] set Show / Hide Show bias

Show/Hide slurm Snap Bin Size Status bar subcommands Symmetry

T

tracks

U

Update Frequency

upload session use ploidy corrected contigs

V

version View

Virtual4C Visible annotations

W

webserver

Wheel zoom Working icon

Z

Zero Track at Ends

zygosity